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core::scoring::hbonds::HBondEnergy Member List

This is the complete list of members for core::scoring::hbonds::HBondEnergy, including all inherited members.

__pad0__core::scoring::hbonds::HBondEnergy
atomic_interaction_cutoff() const overridecore::scoring::hbonds::HBondEnergyvirtual
atoms_with_dof_derivatives(conformation::Residue const &res, pose::Pose const &p) const core::scoring::methods::TwoBodyEnergyvirtual
backbone_backbone_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
backbone_sidechain_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
bump_energy_backbone(conformation::Residue const &, conformation::Residue const &, pose::Pose const &, ScoreFunction const &, EnergyMap &) const core::scoring::methods::TwoBodyEnergyvirtual
bump_energy_full(conformation::Residue const &, conformation::Residue const &, pose::Pose const &, ScoreFunction const &, EnergyMap &) const core::scoring::methods::TwoBodyEnergyvirtual
center_core::scoring::hbonds::HBondEnergymutableprivate
clone() const overridecore::scoring::hbonds::HBondEnergyvirtual
ContextDependentTwoBodyEnergy(EnergyMethodCreatorOP creator)core::scoring::methods::ContextDependentTwoBodyEnergy
create_rotamer_trie(conformation::RotamerSetBase const &rotset, pose::Pose const &pose) const core::scoring::hbonds::HBondEnergyprivate
create_rotamer_trie(conformation::Residue const &res, pose::Pose const &pose) const core::scoring::hbonds::HBondEnergyprivate
database_core::scoring::hbonds::HBondEnergyprivate
defines_high_order_terms(pose::Pose const &) const core::scoring::methods::EnergyMethodvirtual
defines_intrares_dof_derivatives(pose::Pose const &p) const core::scoring::methods::TwoBodyEnergyvirtual
defines_intrares_energy(EnergyMap const &weights) const overridecore::scoring::hbonds::HBondEnergyvirtual
defines_intrares_energy_for_residue(conformation::Residue const &res) const core::scoring::methods::TwoBodyEnergyvirtual
defines_score_for_residue_pair(conformation::Residue const &res1, conformation::Residue const &res2, bool res_moving_wrt_eachother) const overridecore::scoring::hbonds::HBondEnergyvirtual
divides_backbone_and_sidechain_energetics() const overridecore::scoring::hbonds::HBondEnergyinlinevirtual
drawn_out_heavyatom_hydrogenatom_energy(hbtrie::HBAtom const &at1, hbtrie::HBAtom const &at2, bool flipped, core::scoring::trie::TrieVsTrieCachedDataContainerBase const *const cached_data) const core::scoring::hbonds::HBondEnergy
EnergyMethod(EnergyMethodCreatorOP creator)core::scoring::methods::EnergyMethod
eval_atom_derivative(id::AtomID const &id, pose::Pose const &pose, kinematics::DomainMap const &domain_map, ScoreFunction const &sfxn, EnergyMap const &emap, Vector &F1, Vector &F2) const core::scoring::methods::EnergyMethodvirtual
eval_intrares_derivatives(conformation::Residue const &rsd, ResSingleMinimizationData const &min_data, pose::Pose const &pose, EnergyMap const &weights, utility::vector1< DerivVectorPair > &atom_derivs) const overridecore::scoring::hbonds::HBondEnergyvirtual
eval_intrares_energy(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
eval_intrares_energy_ext(conformation::Residue const &rsd, ResSingleMinimizationData const &data_cache, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const core::scoring::methods::TwoBodyEnergyvirtual
eval_intraresidue_dof_derivative(conformation::Residue const &rsd, ResSingleMinimizationData const &min_data, id::DOF_ID const &dof_id, id::TorsionID const &torsion_id, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights) const core::scoring::methods::TwoBodyEnergyvirtual
eval_residue_pair_derivatives(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &, ResSingleMinimizationData const &, ResPairMinimizationData const &min_data, pose::Pose const &pose, EnergyMap const &weights, utility::vector1< DerivVectorPair > &r1_atom_derivs, utility::vector1< DerivVectorPair > &r2_atom_derivs) const overridecore::scoring::hbonds::HBondEnergyvirtual
evaluate_rotamer_background_energies(conformation::RotamerSetBase const &set, conformation::Residue const &residue, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, utility::vector1< core::PackerEnergy > &energy_vector) const overridecore::scoring::hbonds::HBondEnergyvirtual
evaluate_rotamer_background_energy_maps(conformation::RotamerSetBase const &set, conformation::Residue const &residue, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, utility::vector1< EnergyMap > &emaps) const overridecore::scoring::methods::ShortRangeTwoBodyEnergyvirtual
evaluate_rotamer_intrares_energies(conformation::RotamerSetBase const &set, pose::Pose const &pose, ScoreFunction const &sfxn, utility::vector1< core::PackerEnergy > &energies) const core::scoring::methods::TwoBodyEnergyvirtual
evaluate_rotamer_intrares_energy_maps(conformation::RotamerSetBase const &set, pose::Pose const &pose, ScoreFunction const &sfxn, utility::vector1< EnergyMap > &emaps) const core::scoring::methods::TwoBodyEnergyvirtual
evaluate_rotamer_pair_energies(conformation::RotamerSetBase const &set1, conformation::RotamerSetBase const &set2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap const &weights, ObjexxFCL::FArray2D< core::PackerEnergy > &energy_table) const overridecore::scoring::hbonds::HBondEnergyvirtual
finalize_after_derivatives(pose::Pose &, ScoreFunction const &) const core::scoring::methods::EnergyMethodvirtual
finalize_after_minimizing(pose::Pose &pose) const core::scoring::methods::EnergyMethodvirtual
finalize_total_energy(pose::Pose &pose, ScoreFunction const &, EnergyMap &totals) const overridecore::scoring::hbonds::HBondEnergyvirtual
hbond_derivs_1way(EnergyMap const &weights, HBondSet const &hbond_set, HBondDatabaseCOP database, conformation::Residue const &don_rsd, conformation::Residue const &acc_rsd, Size const don_nb, Size const acc_nb, bool const exclude_bsc, bool const exclude_scb, Real const ssdep_weight_factor, utility::vector1< DerivVectorPair > &don_atom_derivs, utility::vector1< DerivVectorPair > &acc_atom_derivs, bool bond_near_wat=false) const core::scoring::hbonds::HBondEnergy
HBondEnergy(HBondOptions const &opts)core::scoring::hbonds::HBondEnergy
HBondEnergy(HBondEnergy const &src)core::scoring::hbonds::HBondEnergy
heavyatom_heavyatom_energy(hbtrie::HBAtom const &at1, hbtrie::HBAtom const &at2, DistanceSquared &d2, Size &) const core::scoring::hbonds::HBondEnergyinline
heavyatom_hydrogenatom_energy(hbtrie::HBAtom const &at1, hbtrie::HBAtom const &at2, bool const flipped, core::scoring::trie::TrieVsTrieCachedDataContainerBase const *const cached_data) const core::scoring::hbonds::HBondEnergyinline
hydrogen_interaction_cutoff2() const core::scoring::hbonds::HBondEnergy
hydrogenatom_heavyatom_energy(hbtrie::HBAtom const &at1, hbtrie::HBAtom const &at2, Size &, core::scoring::trie::TrieVsTrieCachedDataContainerBase const *const cached_data) const core::scoring::hbonds::HBondEnergyinline
hydrogenatom_hydrogenatom_energy(hbtrie::HBAtom const &, hbtrie::HBAtom const &, Size &, core::scoring::trie::TrieVsTrieCachedDataContainerBase const *const ) const core::scoring::hbonds::HBondEnergyinline
indicate_required_context_graphs(utility::vector1< bool > &context_graphs_required) const overridecore::scoring::hbonds::HBondEnergyvirtual
membrane_core_core::scoring::hbonds::HBondEnergymutableprivate
method_type() const overridecore::scoring::methods::ContextDependentTwoBodyEnergyvirtual
minimize_in_whole_structure_context(pose::Pose const &) const overridecore::scoring::hbonds::HBondEnergyvirtual
normal_core::scoring::hbonds::HBondEnergymutableprivate
options_core::scoring::hbonds::HBondEnergyprivate
parent typedefcore::scoring::methods::ContextDependentTwoBodyEnergy
prepare_rotamers_for_packing(pose::Pose const &pose, conformation::RotamerSetBase &set) const overridecore::scoring::hbonds::HBondEnergyvirtual
provide_citation_info(basic::citation_manager::CitationCollectionList &) const core::scoring::methods::EnergyMethodvirtual
requires_a_setup_for_derivatives_for_residue_opportunity(pose::Pose const &pose) const core::scoring::methods::TwoBodyEnergyvirtual
requires_a_setup_for_derivatives_for_residue_pair_opportunity(pose::Pose const &pose) const overridecore::scoring::hbonds::HBondEnergyvirtual
requires_a_setup_for_scoring_for_residue_opportunity_during_minimization(pose::Pose const &pose) const core::scoring::methods::TwoBodyEnergyvirtual
requires_a_setup_for_scoring_for_residue_opportunity_during_regular_scoring(pose::Pose const &pose) const core::scoring::methods::EnergyMethodvirtual
requires_a_setup_for_scoring_for_residue_pair_opportunity(pose::Pose const &pose) const core::scoring::methods::TwoBodyEnergyvirtual
residue_pair_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
residue_pair_energy_ext(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResPairMinimizationData const &min_data, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
score_types() const core::scoring::methods::EnergyMethodinline
set_score_types(EnergyMethodCreatorOP creator)core::scoring::methods::EnergyMethodprotected
setup_for_derivatives(pose::Pose &pose, ScoreFunction const &sfxn) const core::scoring::methods::EnergyMethodvirtual
setup_for_derivatives_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, ResSingleMinimizationData &min_data, basic::datacache::BasicDataCache &res_data_cache) const core::scoring::methods::TwoBodyEnergyvirtual
setup_for_derivatives_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &minsingle_data1, ResSingleMinimizationData const &minsingle_data2, pose::Pose const &pose, ScoreFunction const &sfxn, ResPairMinimizationData &data_cache) const core::scoring::methods::TwoBodyEnergyvirtual
setup_for_minimizing(pose::Pose &, ScoreFunction const &, kinematics::MinimizerMapBase const &) const core::scoring::methods::EnergyMethodvirtual
setup_for_minimizing_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, kinematics::MinimizerMapBase const &minmap, basic::datacache::BasicDataCache &, ResSingleMinimizationData &res_data_cache) const overridecore::scoring::hbonds::HBondEnergyvirtual
setup_for_minimizing_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, kinematics::MinimizerMapBase const &minmap, ResSingleMinimizationData const &res1_data_cache, ResSingleMinimizationData const &res2_data_cache, ResPairMinimizationData &data_cache) const overridecore::scoring::hbonds::HBondEnergyvirtual
setup_for_packing(pose::Pose &pose, utility::vector1< bool > const &, utility::vector1< bool > const &) const overridecore::scoring::hbonds::HBondEnergyvirtual
setup_for_packing_with_rotsets(pose::Pose &pose, pack_basic::RotamerSetsBaseOP const &rotsets, ScoreFunction const &sfxn) const core::scoring::methods::EnergyMethodvirtual
setup_for_scoring(pose::Pose &pose, ScoreFunction const &) const overridecore::scoring::hbonds::HBondEnergyvirtual
setup_for_scoring_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, ResSingleMinimizationData &min_data) const core::scoring::methods::TwoBodyEnergyvirtual
core::scoring::methods::EnergyMethod::setup_for_scoring_for_residue(conformation::Residue const &rsd, pose::Pose const &pose, ScoreFunction const &sfxn, basic::datacache::BasicDataCache &residue_data_cache) const core::scoring::methods::EnergyMethodvirtual
setup_for_scoring_for_residue_pair(conformation::Residue const &rsd1, conformation::Residue const &rsd2, ResSingleMinimizationData const &minsingle_data1, ResSingleMinimizationData const &minsingle_data2, pose::Pose const &pose, ScoreFunction const &sfxn, ResPairMinimizationData &data_cache) const core::scoring::methods::TwoBodyEnergyvirtual
ShortRangeTwoBodyEnergy(EnergyMethodCreatorOP)core::scoring::methods::ShortRangeTwoBodyEnergy
show_additional_info(std::ostream &, pose::Pose &, bool) const core::scoring::methods::EnergyMethodvirtual
sidechain_sidechain_energy(conformation::Residue const &rsd1, conformation::Residue const &rsd2, pose::Pose const &pose, ScoreFunction const &sfxn, EnergyMap &emap) const overridecore::scoring::hbonds::HBondEnergyvirtual
steepness_core::scoring::hbonds::HBondEnergymutableprivate
thickness_core::scoring::hbonds::HBondEnergymutableprivate
TwoBodyEnergy(EnergyMethodCreatorOP)core::scoring::methods::TwoBodyEnergy
update_residue_for_packing(pose::Pose &pose, Size resid) const overridecore::scoring::hbonds::HBondEnergyvirtual
use_extended_intrares_energy_interface() const core::scoring::methods::TwoBodyEnergyvirtual
use_extended_residue_pair_energy_interface() const overridecore::scoring::hbonds::HBondEnergyvirtual
version() const overridecore::scoring::hbonds::HBondEnergyprivatevirtual
~ContextDependentTwoBodyEnergy() overridecore::scoring::methods::ContextDependentTwoBodyEnergy
~HBondEnergy() overridecore::scoring::hbonds::HBondEnergy
~ShortRangeTwoBodyEnergy() overridecore::scoring::methods::ShortRangeTwoBodyEnergy
~TwoBodyEnergy() overridecore::scoring::methods::TwoBodyEnergy
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